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I updated MultiQC from version 1.27 to 1.28 in <#C06TRU74N4D|> and it messed one of the plot displays.  Is that a know issue?

The fact that it says "Loading" in the sidebar on the right tells me that there is a JavaScript error that has crashed the report 

That particular missing plot is probably a red herring - it just crashed before it got to that part of the report when rendering 

Can you look in the browser developer JavaScript console please? There should be a nice big red error about something. 

But yes this sounds very much like it's a bug that we will need to fix. This basically should never happen :pensive: So if you could please make an issue with a minimal example that would be fantastic :pray::skin-tone-2:  

Thanks for the prompt answer! Here is a capture of the console. You can reproduce the MultiQC output file by running the `test` profile of the `pairgenomealign` pipeline on the branch `multiqc_1.28`. You can run the same test with multiqc 1.27 on the `2.0.0` branch, which differse only by the module update.

Huh, strange. Any chance that you could send me just the HTML file? Saves me faffing around with the pipeline if you have it handy.

multiqc_report.html

Please let me know if I need to delete the post after you downloaded the file to save space.

Thanks! From Slack you mean? Should be no problem.

No javascript error, you're right. Then what on earth is going on :thinking_face:

It's like the JS rendering is stuck in an infinite loop or something

The h3 element and the plot wrapper have the same `id`

So the plot is rendered inside the header instead of the placeholder

Would love the original input file/config to help reproduce...

Screenshot 2025-05-09 at 09.18.12.png

Because even if I force the section anchor and the plot anchor the same in the custom content file, the ids still should be deduplicated (see that `-1` suffix in the first line)

<@U0222LUMDTN> I can't find the branch `multiqc_1.28` - <https://github.com/nf-core/pairgenomealign/branches/all>

A configuration like this does it:

# id: custom_bargraph_tsv
# pconfig:
#    anchor: 'custom_bargraph_tsv'

Will fix

Sorry I pushed the wrong repo.  The branch is there now.

<@U053GTLFPHQ> bingo: <https://github.com/nf-core/pairgenomealign/blob/9ed7c7bd3247b39ffacad59d1aeb2ac3d294416d/modules/local/multiqc_assemblyscan_plot_data/main.nf#L25|1>, <https://github.com/nf-core/pairgenomealign/blob/9ed7c7bd3247b39ffacad59d1aeb2ac3d294416d/modules/local/multiqc_assemblyscan_plot_data/main.nf#L31|2>

Thanks <@U0222LUMDTN> :pray::skin-tone-2: No need now I think as <@U053GTLFPHQ> managed to figure it out and reproduce it

We will push a fix to prevent this from happening, but really the root cause is an error in your custom content data.

Easy to fix: just change <https://github.com/nf-core/pairgenomealign/blob/9ed7c7bd3247b39ffacad59d1aeb2ac3d294416d/modules/local/multiqc_assemblyscan_plot_data/main.nf#L30-L31|these lines>

```    echo "# pconfig:" &gt;&gt; gc_summary_mqc.tsv
    echo "#    id: 'base_content_summary_plot'" &gt;&gt; gc_summary_mqc.tsv```

Adding the `_plot` suffix will make that ID unique and should solve your problem